Mercurial > repos > fubar > jbrowse2
changeset 11:f5ce31c2f47d draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit 4baeb144cafbb61ae0587cce731066129097c168
| author | fubar |
|---|---|
| date | Sat, 20 Jan 2024 09:33:22 +0000 |
| parents | c60b17456297 |
| children | 247e17ce504b |
| files | jbrowse2.py jbrowse2.xml |
| diffstat | 2 files changed, 4 insertions(+), 3 deletions(-) [+] |
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--- a/jbrowse2.py Sat Jan 20 07:13:26 2024 +0000 +++ b/jbrowse2.py Sat Jan 20 09:33:22 2024 +0000 @@ -1174,7 +1174,7 @@ refName = None if data.get("defaultLocation", ""): - loc_match = re.search(r"^(\w+):(\d+)\.+(\d+)$", data["defaultLocation"]) + loc_match = re.search(r"^(\w.+):(\d+)\.+(\d+)$", data["defaultLocation"]) if loc_match: refName = loc_match.group(1) start = int(loc_match.group(2))
--- a/jbrowse2.xml Sat Jan 20 07:13:26 2024 +0000 +++ b/jbrowse2.xml Sat Jan 20 09:33:22 2024 +0000 @@ -226,7 +226,7 @@ <param type="select" label="Track Type" name="data_format_select"> <option value="pileup">BAM Pileup track</option> <option value="wiggle">BigWig track</option> - <option value="blast">Blast XML track - converted to GFF</option> + <!-- <option value="blast">Blast XML track - converted to GFF</option> --> <option value="cram">CRAM</option> <option value="gene_calls" selected="true">GFF/GFF3/BED feature track</option> <option value="hic">HiC (compressed binary) track. Existing cool format must be converted to binary hic - hic_matrix will NOT work.</option> @@ -234,6 +234,7 @@ <option value="synteny">Synteny track with PAF data</option> <option value="vcf">VCF SNP annotation</option> </param> + <!-- <when value="blast"> <expand macro="input_conditional" label="BlastXML Track Data" format="blastxml" /> @@ -256,7 +257,7 @@ truevalue="true" falsevalue="false" /> <expand macro="track_visibility" /> - </when> + </when> --> <when value="vcf"> <expand macro="input_conditional" label="SNP Track Data" format="vcf,vcf_bgzip" /> <expand macro="track_styling_vcf"/>